OOIR: Observatory of International Research

Papers

(The H4-Index of Microbiome is 68. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-09-01 to 2025-09-01.)

Article	Citations
Phylogeny-guided microbiome OTU-specific association test (POST)	499
Correction: Sodium levels and grazing pressure shape natural communities of the intracellular pathogen Legionella	404
Correction: Gut microbiota-derived propionate mediates the neuroprotective effect of osteocalcin in a mouse model of Parkinson’s disease	400
Should we modulate the neonatal microbiome and what should be the goal?	322
Microbial active functional modules derived from network analysis and metabolic interactions decipher the complex microbiome assembly in mangrove sediments	232
Integrated multi-omics analysis reveals the positive leverage of citrus flavonoids on hindgut microbiota and host homeostasis by modulating sphingolipid metabolism in mid-lactation dairy cows consumin	220
Role of nasal microbiota in regulating host anti-influenza immunity in dogs	220
Engrafting gut bacteriophages have potential to modulate microbial metabolism in fecal microbiota transplantation	198
No microorganism was detected in amniotic fluid of healthy pregnancies from the second trimester to the delivery	195
Dissolved storage glycans shaped the community composition of abundant bacterioplankton clades during a North Sea spring phytoplankton bloom	177
A glimpse of the paleome in endolithic microbial communities	177
Blocked conversion of Lactobacillus johnsonii derived acetate to butyrate mediates copper-induced epithelial barrier damage in a pig model	174
Using strain-resolved analysis to identify contamination in metagenomics data	169
Bifidobacterial carbohydrate/nucleoside metabolism enhances oxidative phosphorylation in white adipose tissue to protect against diet-induced obesity	164
Effects of melatonin on rumen microorganisms and methane production in dairy cow: results from in vitro and in vivo studies	162
β-Elemonic acid mediated enrichment of Paenibacillus to help Salvia miltiorrhiza Bunge alleviate drought stress	153
Methanolobus use unspecific methyltransferases to produce methane from dimethylsulphide in Baltic Sea sediments	150
Metabolite-mediated interactions and direct contact between Fusobacterium varium and Faecalibacterium prausnitzii	149
Bacterial quorum sensing orchestrates longitudinal interactions to shape microbiota assembly	145
LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis	140
Latent antibiotic resistance genes are abundant, diverse, and mobile in human, animal, and environmental microbiomes	137
Landscape of the gut archaeome in association with geography, ethnicity, urbanization, and diet in the Chinese population	129
Microbial community regulation and performance enhancement in gas biofilters by interrupting bacterial communication	126
Oligofructose improves small intestinal lipid-sensing mechanisms via alterations to the small intestinal microbiota	123
Impact of diet in shaping gut virome of grain-fed and grass-fed beef cattle revealed by a comparative metagenomic study	120

From dysbiosis to defense: harnessing the gut microbiome in HIV/SIV therapy	120
Gut dysbiosis promotes prostate cancer progression and docetaxel resistance via activating NF-κB-IL6-STAT3 axis	118
Stool energy density is positively correlated to intestinal transit time and related to microbial enterotypes	118
Cover crop root exudates impact soil microbiome functional trajectories in agricultural soils	116
Colonization during a key developmental window reveals microbiota-dependent shifts in growth and immunity during undernutrition	110
Lower viral evolutionary pressure under stable versus fluctuating conditions in subzero Arctic brines	109
Colonocyte-derived lactate promotes E. coli fitness in the context of inflammation-associated gut microbiota dysbiosis	104
Cooperation between host immunity and the gut bacteria is essential for helminth-evoked suppression of colitis	102
Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem	101
Microbiota-indole 3-propionic acid-brain axis mediates abnormal synaptic pruning of hippocampal microglia and susceptibility to ASD in IUGR offspring	100
H2 generated by fermentation in the human gut microbiome influences metabolism and competitive fitness of gut butyrate producers	96
Characterizing the gut phageome and phage-borne antimicrobial resistance genes in pigs	94
Complementary insights into gut viral genomes: a comparative benchmark of short- and long-read metagenomes using diverse assemblers and binners	93
Gut barrier-microbiota imbalances in early life lead to higher sensitivity to inflammation in a murine model of C-section delivery	92
An improved workflow for accurate and robust healthcare environmental surveillance using metagenomics	92
Determination of antibiotic resistance patterns and genotypes of Escherichia coli isolated from wild birds	87
Metabolite-based dietary supplementation in human type 1 diabetes is associated with microbiota and immune modulation	87
Integration of spatio-temporal variations of surface metabolomes and epibacterial communities highlights the importance of copper stress as a major factor shaping host-microbiota interactions within a	86
Eubacterium siraeum suppresses fat deposition via decreasing the tyrosine-mediated PI3K/AKT signaling pathway in high-fat diet-induced obesity	86
Correction: Inulin diet uncovers complex diet-microbiota-immune cell interactions remodeling the gut epithelium	85
High-resolution metagenomic reconstruction of the freshwater spring bloom	85
Correction to: Disentangling environmental effects in microbial association networks	85
Microbial growth and volatile organic compound (VOC) emissions from carpet and drywall under elevated relative humidity conditions	82
Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture	81
Gut-derived IL-13 contributes to growth via promoting hepatic IGF-1 production	81
Geography, not lifestyle, explains the population structure of free-living and host-associated deep-sea hydrothermal vent snail symbionts	81
Disentangling environmental effects in microbial association networks	81
Milk oligosaccharide-driven persistence of Bifidobacterium pseudocatenulatum modulates local and systemic microbial metabolites upon synbiotic treatment in conventionally colonized mice	80
Biogeographical survey of soil microbiomes across sub-Saharan Africa: structure, drivers, and predicted climate-driven changes	79
Metaproteomics reveals diet-induced changes in gut microbiome function according to Crohn’s disease location	78
Gastrointestinal jumbo phages possess independent synthesis and utilization systems of NAD+	78
A synbiotic mixture of selected oligosaccharides and bifidobacteria assists murine gut microbiota restoration following antibiotic challenge	78
The core root microbiome of Spartina alterniflora is predominated by sulfur-oxidizing and sulfate-reducing bacteria in Georgia salt marshes, USA	78
Global analysis of the biosynthetic chemical space of marine prokaryotes	78
Gut metabolites predict Clostridioides difficile recurrence	77
The effect of 3-nitrooxypropanol, a potent methane inhibitor, on ruminal microbial gene expression profiles in dairy cows	75
Elucidating the role of the gut microbiota in the physiological effects of dietary fiber	74
Anthropogenic activities mediate stratification and stability of microbial communities in freshwater sediments	74
Metagenomics-resolved genomics provides novel insights into chitin turnover, metabolic specialization, and niche partitioning in the octocoral microbiome	73
VBCG: 20 validated bacterial core genes for phylogenomic analysis with high fidelity and resolution	70
Gut microbiota-derived ursodeoxycholic acid alleviates low birth weight-induced colonic inflammation by enhancing M2 macrophage polarization	70
Altered gut metabolites and microbiota interactions are implicated in colorectal carcinogenesis and can be non-invasive diagnostic biomarkers	69
Reproducible and opposing gut microbiome signatures distinguish autoimmune diseases and cancers: a systematic review and meta-analysis	69
Seasonal variations of microbial communities and viral diversity in fishery-enhanced marine ranching sediments: insights into metabolic potentials and ecological interactions	68
Functional traits and adaptation of lake microbiomes on the Tibetan Plateau	68
Lactobacillus reuteri improves the development and maturation of fecal microbiota in piglets through mother-to-infant microbe and metabolite vertical transmission	68
The role of the oral microbiota in the causal effect of adjunctive antibiotics on clinical outcomes in stage III–IV periodontitis patients	68
Correction: Microbial active functional modules derived from network analysis and metabolic interactions decipher the complex microbiome assembly in mangrove sediments	68
Extensive data mining uncovers novel diversity among members of the rare biosphere within the Thermoplasmatota	68